Variant report

Variant	rs35890901
Chromosome Location	chr1:153578219-153578220
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:153533881..153554060-chr1:153575339..153590405,58	MCF-7	breast:
2	chr1:153576020..153578854-chr1:153580730..153582449,2	K562	blood:
3	chr1:153548198..153549915-chr1:153576561..153578484,2	K562	blood:
4	chr1:153537828..153540550-chr1:153577854..153580339,2	K562	blood:

Variant related genes	Relation type
ENSG00000196754	Chromatin interaction
ENSG00000188643	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs11548102	0.81[ASN][1000 genomes]
rs4072425	0.81[ASN][1000 genomes]
rs9330298	0.81[ASN][1000 genomes]
rs9699949	0.83[ASN][1000 genomes]
rs9700179	0.84[ASN][1000 genomes]
rs9726753	0.81[ASN][1000 genomes]
rs9792963	0.81[ASN][1000 genomes]
rs9792967	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010488	chr1:152901263-153670972	Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases
2	nsv535171	chr1:152901263-153670972	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs35890901	S100A13	Cis_1M	lymphoblastoid	RTeQTL
rs35890901	S100A14	cis	Thyroid	GTEx

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:153560400-153580000	Weak transcription	Right Atrium	heart
2	chr1:153565800-153580400	Weak transcription	Brain Anterior Caudate	brain
3	chr1:153565800-153580400	Weak transcription	Fetal Kidney	kidney
4	chr1:153566800-153579200	Weak transcription	Aorta	Aorta
5	chr1:153570400-153579800	Weak transcription	HepG2	liver
6	chr1:153571200-153579000	Weak transcription	Right Ventricle	heart
7	chr1:153571400-153578400	Weak transcription	Colonic Mucosa	Colon
8	chr1:153571400-153578400	Weak transcription	Left Ventricle	heart
9	chr1:153571400-153579000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr1:153571400-153579000	Weak transcription	Lung	lung
11	chr1:153571400-153579000	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr1:153571400-153580000	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr1:153571600-153578400	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr1:153571600-153578800	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr1:153571600-153579200	Weak transcription	Brain Hippocampus Middle	brain
16	chr1:153571600-153579400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr1:153572200-153578800	Weak transcription	NH-A	brain
18	chr1:153572200-153579000	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr1:153572400-153578400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr1:153572400-153578400	Weak transcription	NHEK	skin
21	chr1:153572400-153578600	Weak transcription	Liver	Liver
22	chr1:153572400-153578800	Weak transcription	Duodenum Smooth Muscle	Duodenum
23	chr1:153572400-153579000	Weak transcription	Fetal Muscle Leg	muscle
24	chr1:153572400-153579000	Weak transcription	HSMMtube	muscle
25	chr1:153572400-153579200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr1:153572400-153579400	Weak transcription	Placenta	Placenta
27	chr1:153572400-153579600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
28	chr1:153572400-153580600	Weak transcription	H1 Cell Line	embryonic stem cell
29	chr1:153572600-153579000	Weak transcription	NHDF-Ad	bronchial
30	chr1:153572600-153579400	Weak transcription	Cortex derived primary cultured neurospheres	brain
31	chr1:153572600-153579400	Weak transcription	Spleen	Spleen
32	chr1:153572600-153580800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr1:153573400-153579800	Weak transcription	Pancreas	Pancrea
34	chr1:153574600-153579000	Weak transcription	Adipose Nuclei	Adipose
35	chr1:153575000-153582000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr1:153575600-153580000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
37	chr1:153575800-153579000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr1:153575800-153579200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr1:153575800-153579600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr1:153575800-153579600	Strong transcription	HSMM	muscle
41	chr1:153575800-153580600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr1:153575800-153580800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr1:153576000-153579400	Weak transcription	Rectal Smooth Muscle	rectum
44	chr1:153576400-153579000	Weak transcription	Ovary	ovary
45	chr1:153576400-153579600	Strong transcription	HMEC	breast
46	chr1:153576800-153578400	Weak transcription	Colon Smooth Muscle	Colon
47	chr1:153576800-153580600	Strong transcription	Osteobl	bone
48	chr1:153577000-153578600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
49	chr1:153577000-153578800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr1:153577000-153579600	Strong transcription	Muscle Satellite Cultured Cells	--

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